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Terabase-scale metagenome coassembly with MetaHipMer.
Hofmeyr S, Egan R, Georganas E, Copeland AC, Riley R, Clum A, Eloe-Fadrosh E, Roux S, Goltsman E, Buluç A, Rokhsar D, Oliker L, Yelick K. Hofmeyr S, et al. Among authors: rokhsar d. Sci Rep. 2020 Jul 1;10(1):10689. doi: 10.1038/s41598-020-67416-5. Sci Rep. 2020. PMID: 32612216 Free PMC article.
Plant Pan-Genomics Comes of Age.
Lei L, Goltsman E, Goodstein D, Wu GA, Rokhsar DS, Vogel JP. Lei L, et al. Among authors: rokhsar ds. Annu Rev Plant Biol. 2021 Jun 17;72:411-435. doi: 10.1146/annurev-arplant-080720-105454. Epub 2021 Apr 13. Annu Rev Plant Biol. 2021. PMID: 33848428
The genome portal of the Department of Energy Joint Genome Institute.
Grigoriev IV, Nordberg H, Shabalov I, Aerts A, Cantor M, Goodstein D, Kuo A, Minovitsky S, Nikitin R, Ohm RA, Otillar R, Poliakov A, Ratnere I, Riley R, Smirnova T, Rokhsar D, Dubchak I. Grigoriev IV, et al. Among authors: rokhsar d. Nucleic Acids Res. 2012 Jan;40(Database issue):D26-32. doi: 10.1093/nar/gkr947. Epub 2011 Nov 22. Nucleic Acids Res. 2012. PMID: 22110030 Free PMC article.
Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors.
Gordon SP, Contreras-Moreira B, Levy JJ, Djamei A, Czedik-Eysenberg A, Tartaglio VS, Session A, Martin J, Cartwright A, Katz A, Singan VR, Goltsman E, Barry K, Dinh-Thi VH, Chalhoub B, Diaz-Perez A, Sancho R, Lusinska J, Wolny E, Nibau C, Doonan JH, Mur LAJ, Plott C, Jenkins J, Hazen SP, Lee SJ, Shu S, Goodstein D, Rokhsar D, Schmutz J, Hasterok R, Catalan P, Vogel JP. Gordon SP, et al. Among authors: rokhsar d. Nat Commun. 2020 Jul 29;11(1):3670. doi: 10.1038/s41467-020-17302-5. Nat Commun. 2020. PMID: 32728126 Free PMC article.
Assemblathon 1: a competitive assessment of de novo short read assembly methods.
Earl D, Bradnam K, St John J, Darling A, Lin D, Fass J, Yu HO, Buffalo V, Zerbino DR, Diekhans M, Nguyen N, Ariyaratne PN, Sung WK, Ning Z, Haimel M, Simpson JT, Fonseca NA, Birol İ, Docking TR, Ho IY, Rokhsar DS, Chikhi R, Lavenier D, Chapuis G, Naquin D, Maillet N, Schatz MC, Kelley DR, Phillippy AM, Koren S, Yang SP, Wu W, Chou WC, Srivastava A, Shaw TI, Ruby JG, Skewes-Cox P, Betegon M, Dimon MT, Solovyev V, Seledtsov I, Kosarev P, Vorobyev D, Ramirez-Gonzalez R, Leggett R, MacLean D, Xia F, Luo R, Li Z, Xie Y, Liu B, Gnerre S, MacCallum I, Przybylski D, Ribeiro FJ, Yin S, Sharpe T, Hall G, Kersey PJ, Durbin R, Jackman SD, Chapman JA, Huang X, DeRisi JL, Caccamo M, Li Y, Jaffe DB, Green RE, Haussler D, Korf I, Paten B. Earl D, et al. Among authors: rokhsar ds. Genome Res. 2011 Dec;21(12):2224-41. doi: 10.1101/gr.126599.111. Epub 2011 Sep 16. Genome Res. 2011. PMID: 21926179 Free PMC article.
The genome of the Western clawed frog Xenopus tropicalis.
Hellsten U, Harland RM, Gilchrist MJ, Hendrix D, Jurka J, Kapitonov V, Ovcharenko I, Putnam NH, Shu S, Taher L, Blitz IL, Blumberg B, Dichmann DS, Dubchak I, Amaya E, Detter JC, Fletcher R, Gerhard DS, Goodstein D, Graves T, Grigoriev IV, Grimwood J, Kawashima T, Lindquist E, Lucas SM, Mead PE, Mitros T, Ogino H, Ohta Y, Poliakov AV, Pollet N, Robert J, Salamov A, Sater AK, Schmutz J, Terry A, Vize PD, Warren WC, Wells D, Wills A, Wilson RK, Zimmerman LB, Zorn AM, Grainger R, Grammer T, Khokha MK, Richardson PM, Rokhsar DS. Hellsten U, et al. Among authors: rokhsar ds. Science. 2010 Apr 30;328(5978):633-6. doi: 10.1126/science.1183670. Science. 2010. PMID: 20431018 Free PMC article.
197 results